DriverFirstMoment Class Reference

#include <firstmoment.hpp>

Inheritance diagram for DriverFirstMoment:

List of all members.

Public Member Functions
	DriverFirstMoment (const ScoreMatrix &score, int gap_open, int gap_extension)
virtual bool	NeedForward ()
virtual void	OnForward (long i, const PartitionWorkspace::RowInfo &last_row, const PartitionWorkspace::RowInfo &curr_row, const PartitionWorkspace::const_iterator last, const PartitionWorkspace::const_iterator curr)
double	FirstMoment ()
events before and after the computation
virtual void	BeforeComputation ()
virtual void	AfterComputation ()

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Detailed Description

A driver to compute the expected score.

This driver computes the expected score according to the probabilistic alignment model.

Examples:

freescore.cpp.

Definition at line 83 of file firstmoment.hpp.

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Constructor & Destructor Documentation

DriverFirstMoment::DriverFirstMoment	(	const ScoreMatrix &	score,
		int	gap_open,
		int	gap_extension
	)

Constructor. The constructor requires the parameters of the scoring function for which the expected score should be computed.

Parameters:

	score	the scoring matrix
	gap_open	the gap open parameter
	gap_extension	the gap extension parameter

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Member Function Documentation

virtual void DriverFirstMoment::AfterComputation

(

)

[virtual]

An event that is thrown when the complete computation has been finished, forward and evtl. backward if required.

Reimplemented from PartitionDriverBase.

virtual void DriverFirstMoment::BeforeComputation

(

)

[virtual]

An event that is thrown before the acutal computation begins.

Reimplemented from PartitionDriverBase.

double DriverFirstMoment::FirstMoment

(

)

The result. The computed first moment is available after the computation.

Returns:

expected score

Examples:

freescore.cpp.

virtual bool DriverFirstMoment::NeedForward

(

)

[inline, virtual]

Requirement. We need the forward partition functions from the main algorithm.

Reimplemented from PartitionDriverBase.

Definition at line 103 of file firstmoment.hpp.

virtual void DriverFirstMoment::OnForward	(	long	i,
		const PartitionWorkspace::RowInfo &	last_row,
		const PartitionWorkspace::RowInfo &	curr_row,
		const PartitionWorkspace::const_iterator	last,
		const PartitionWorkspace::const_iterator	curr
	)			[virtual]

Callback. The main computation of the weighted partition functions.

Reimplemented from PartitionDriverBase.

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The documentation for this class was generated from the following file:

• src/firstmoment.hpp